RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11790
(110 letters)
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 30.4 bits (68), Expect = 0.10
Identities = 14/86 (16%), Positives = 28/86 (32%), Gaps = 29/86 (33%)
Query: 21 PNFIRDNVQV---VLNELVEDKE-----------VDKW-----------FLISSNSSWLI 55
+ D ++ L+EL+ + +W +L+S S +
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPL 240
Query: 56 IG--TLVVYLAF--VLHIGPKYMKDR 77
IG L Y+ +L P ++
Sbjct: 241 IGVIQLAHYVVTAKLLGFTPGELRSY 266
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 29.4 bits (65), Expect = 0.23
Identities = 19/86 (22%), Positives = 38/86 (44%), Gaps = 14/86 (16%)
Query: 19 WAPNFIRDNVQVVLNELVEDKEVDKWFLISSNSSWLIIGTLVVYLAFVLHIGPKYMKDRK 78
W + I+ +V VV+N+L + V+K S+ I +YL + + +Y R
Sbjct: 396 WF-DVIKSDVMVVVNKLHKYSLVEKQ---PKESTISIPS---IYLELKVKLENEYALHRS 448
Query: 79 PMNIKYIILAYNLFQTVYNAWIVSKD 104
I+ YN+ +T +++ +
Sbjct: 449 ------IVDHYNIPKT-FDSDDLIPP 467
>1so9_A Cytochrome C oxidase assembly protein CTAG; immunoglobulin-like
fold, copper protein, structural proteomics in europe,
spine; NMR {Sinorhizobium meliloti} SCOP: b.146.1.1 PDB:
1sp0_A
Length = 164
Score = 28.3 bits (62), Expect = 0.37
Identities = 7/39 (17%), Positives = 17/39 (43%)
Query: 60 VVYLAFVLHIGPKYMKDRKPMNIKYIILAYNLFQTVYNA 98
+ + V + P+ +K + IK + L+Y + +
Sbjct: 113 EMEMPVVFFVDPEIVKPVETQGIKTLTLSYTFYPREPSK 151
>3gqw_A Fatty acid AMP ligase; FAAL, E. coli, ATP-dependent binding enzyme
family,, structural genomics, PSI-2, protein structure
initiative; HET: ZZ9; 3.00A {Escherichia coli O6} PDB:
3pbk_A*
Length = 576
Score = 26.5 bits (59), Expect = 2.3
Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 14/56 (25%)
Query: 1 MQTISTEAATGFKMALVSWAPNFIRDNVQVVLNELVEDKEVDKWFLISSNSSWLII 56
++ IS T VS AP F + + V +K++ + L S W +
Sbjct: 263 LKLISKNRGT------VSVAPPFGYE----LCQRRVNEKDLAELDL----SCWRVA 304
>3k3s_A Altronate hydrolase; structural genomics, PSI-2, protein STR
initiative, midwest center for structural genomics,
MCSG; HET: MSE; 2.15A {Shigella flexneri 2a str}
Length = 105
Score = 25.1 bits (55), Expect = 3.1
Identities = 11/34 (32%), Positives = 15/34 (44%), Gaps = 4/34 (11%)
Query: 13 KMALVSWAPNFIR----DNVQVVLNELVEDKEVD 42
+ L +I+ DNV V L +L E EV
Sbjct: 14 RENLYFQGMQYIKIHALDNVAVALADLAEGTEVS 47
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 25.9 bits (56), Expect = 3.3
Identities = 7/34 (20%), Positives = 16/34 (47%), Gaps = 8/34 (23%)
Query: 74 MKDRKPMNIKYIILAYNLFQTVYNAWIVSKDFKI 107
+ D K K++++AY F+ + A ++
Sbjct: 153 LSDTKQKGKKFLVIAYEPFENI--A------IEL 178
>3t5a_A Long-chain-fatty-acid--AMP ligase FADD28; acetyl-COA synthetase
like fold, AMP-binding; 2.05A {Mycobacterium
tuberculosis} PDB: 3e53_A
Length = 480
Score = 25.4 bits (56), Expect = 4.2
Identities = 10/56 (17%), Positives = 19/56 (33%), Gaps = 14/56 (25%)
Query: 1 MQTISTEAATGFKMALVSWAPNFIRDNVQVVLNELVEDKEVDKWFLISSNSSWLII 56
M ++++ S APNF + + D ++ L + L I
Sbjct: 275 MHLMASDFHA------FSAAPNFAFE----LAARRTTDDDMAGRDL----GNILTI 316
>1e9g_A Ppase, inorganic pyrophosphatase; pyrophosphate phosphohydrolase,
hydrolase, manganese; HET: PO4; 1.15A {Saccharomyces
cerevisiae} SCOP: b.40.5.1 PDB: 1e6a_A* 1wgi_A 1wgj_A
2ihp_A* 8prk_A 2ik6_A 2ik2_A 2ik4_A 117e_A 2ik1_A*
2ik9_A 2ik0_A 2ik7_A 1m38_A 1ypp_A 1huk_A 1huj_A 1pyp_A
Length = 286
Score = 25.6 bits (56), Expect = 4.4
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 38 DKEVDKWFLISSN 50
DK +DKWF IS +
Sbjct: 273 DKSIDKWFFISGS 285
>3kxw_A Saframycin MX1 synthetase B; fatty acid AMP ligase, SGX, acyl
adenylate, structural genom 2, protein structure
initiative; HET: 1ZZ; 1.85A {Legionella pneumophila
subsp} PDB: 3lnv_A*
Length = 590
Score = 25.0 bits (55), Expect = 7.0
Identities = 7/23 (30%), Positives = 12/23 (52%), Gaps = 6/23 (26%)
Query: 1 MQTISTEAATGFKMALVSWAPNF 23
++ I+ AT +S +PNF
Sbjct: 253 LKHITKYKAT------ISGSPNF 269
>3nzq_A ADC, biosynthetic arginine decarboxylase; alpha-beta protein,
structural genomics, PSI-biology, protei structure
initiative; 3.10A {Escherichia coli}
Length = 666
Score = 24.9 bits (54), Expect = 8.8
Identities = 10/104 (9%), Positives = 34/104 (32%), Gaps = 11/104 (10%)
Query: 15 ALVSWAPNFIRDNVQVVLNELVEDK-EVDKWFL----------ISSNSSWLIIGTLVVYL 63
R +++ L++ D ++ + + + + L
Sbjct: 404 TWQEMHEPGTRRSLREWLHDSQMDLHDIHIGYSSGIFSLQERAWAEQLYLSMCHEVQKQL 463
Query: 64 AFVLHIGPKYMKDRKPMNIKYIILAYNLFQTVYNAWIVSKDFKI 107
+ + + + + ++LFQ++ +AW + + F +
Sbjct: 464 DPQNRAHRPIIDELQERMADKMYVNFSLFQSMPDAWGIDQLFPV 507
>2vdv_E TRNA (guanine-N(7)-)-methyltransferase; S-adenosyl-L-methionine,
phosphorylation, M7G, spout MT, tRNA processing; HET:
SAM; 2.30A {Saccharomyces cerevisiae} PDB: 2vdu_E
Length = 246
Score = 24.3 bits (53), Expect = 9.3
Identities = 6/24 (25%), Positives = 9/24 (37%)
Query: 23 FIRDNVQVVLNELVEDKEVDKWFL 46
+R N L E ++ K F
Sbjct: 111 VLRGNAMKFLPNFFEKGQLSKMFF 134
>4gb7_A 6-aminohexanoate-dimer hydrolase; structural genomics, IDP05595,
national institute of allergy and infectious diseases;
HET: MSE; 1.60A {Bacillus anthracis}
Length = 422
Score = 24.4 bits (53), Expect = 9.4
Identities = 8/48 (16%), Positives = 17/48 (35%)
Query: 52 SWLIIGTLVVYLAFVLHIGPKYMKDRKPMNIKYIILAYNLFQTVYNAW 99
++ ++ ++ + +G Y K K K + N Y W
Sbjct: 8 KSPLLLLIITFIFVITGLGFTYFKHNKTTPSKNNVTKKNWLDDPYLRW 55
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.325 0.138 0.421
Gapped
Lambda K H
0.267 0.0626 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,652,503
Number of extensions: 82921
Number of successful extensions: 174
Number of sequences better than 10.0: 1
Number of HSP's gapped: 174
Number of HSP's successfully gapped: 20
Length of query: 110
Length of database: 6,701,793
Length adjustment: 74
Effective length of query: 36
Effective length of database: 4,635,639
Effective search space: 166883004
Effective search space used: 166883004
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.6 bits)